Variant report

Variant	rs11966433
Chromosome Location	chr6:13145926-13145927
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:13134956..13137287-chr6:13143734..13146232,2	K562	blood:

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10485363	0.82[EUR][1000 genomes]
rs11753549	0.97[ASN][1000 genomes]
rs11755663	0.82[CEU][hapmap];0.85[EUR][1000 genomes]
rs1223532	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1223535	0.94[CEU][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13192887	0.87[CEU][hapmap];0.86[EUR][1000 genomes]
rs13220463	0.88[CEU][hapmap];0.84[EUR][1000 genomes]
rs16873638	0.93[ASW][hapmap];0.94[CEU][hapmap];0.86[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.94[TSI][hapmap];0.93[YRI][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17323391	0.82[CEU][hapmap];0.85[EUR][1000 genomes]
rs2183072	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs2327633	0.82[EUR][1000 genomes]
rs34603187	0.81[EUR][1000 genomes]
rs62385529	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6907388	0.87[CEU][hapmap];0.82[EUR][1000 genomes]
rs6939931	0.81[EUR][1000 genomes]
rs71562464	0.85[EUR][1000 genomes]
rs746593	0.94[CEU][hapmap];0.88[TSI][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv600992	chr6:12961922-13218549	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11966433	LRRC17	trans	cerebellum	SCAN

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:13132800-13153000	Weak transcription	Aorta	Aorta
2	chr6:13140400-13146000	Weak transcription	Brain Substantia Nigra	brain
3	chr6:13140400-13147800	Weak transcription	Fetal Kidney	kidney
4	chr6:13142400-13159400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr6:13144000-13149000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr6:13144600-13148800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr6:13144600-13149000	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr6:13144600-13149200	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chr6:13144800-13149200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr6:13144800-13149400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr6:13145200-13146400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr6:13145400-13146400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr6:13145400-13148400	Enhancers	Brain Anterior Caudate	brain
14	chr6:13145600-13146000	Enhancers	Primary hematopoietic stem cells	blood
15	chr6:13145600-13146000	Enhancers	Primary hematopoietic stem cells short term culture	blood
16	chr6:13145600-13146400	Enhancers	Pancreas	Pancrea
17	chr6:13145800-13146200	Enhancers	Right Ventricle	heart
18	chr6:13145800-13146200	Enhancers	Small Intestine	intestine
19	chr6:13145800-13146400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
20	chr6:13145800-13146400	Enhancers	Left Ventricle	heart
21	chr6:13145800-13147200	Enhancers	Fetal Heart	heart
22	chr6:13145800-13147400	Enhancers	Breast Myoepithelial Primary Cells	Breast

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